Crohn’s + Severe CFS here, among other issues. We would expect an atypical microbiome for CFS/IBS because of the Crohn’s — we were not disappointed!
- Lactobacillus: 0x
- Bifidobacterium: 0.47x
- Akkermansia: 0x
- Diversity: 7%ile
- Firmicutes to Bacteroidetes: 833:1 (Normal 2.1:1)
- Bacteroidets — 0.06 % Firmicutes: 50%
|Bacteria name||Rank||% of Samples|
Because of the extreme shift of Firmicutes to Bacteroidetes, I called out the new bacterial genus that I had to do deep dives on.
- Parasutterella: https://cfsremission.wordpress.com/2017/10/19/decreasing-parasutterella-genus/
- [NEW] Anaerosinus: https://cfsremission.wordpress.com/2017/11/29/reducing-anaerosinus-genus/
- [NEW] Veillonella: https://cfsremission.wordpress.com/2017/11/29/reducing-veillonella-genus/
- Flavonifractor: https://cfsremission.wordpress.com/2017/11/05/reducing-flavonifractor-genus/
- Dorea : https://cfsremission.wordpress.com/2017/10/18/reducing-dorea-genus/
- Clostridium : https://cfsremission.wordpress.com/2017/10/07/decreasing-clostridium-genus/
- [NEW] Lactonifactor: https://cfsremission.wordpress.com/2017/11/29/reducing-lactonifactor-genus/
- Kluyvera: https://cfsremission.wordpress.com/2017/10/31/reducing-kluyvera-genus/
- Lachnospira: https://cfsremission.wordpress.com/2017/11/03/reducing-lachnospira-genus/
- Also: https://atomic-temporary-42474220.wpcomstaging.com/2017/05/26/firmicutesbacteroidetes-ratio/It is interesting to note that this was the first ubiome I encountered with high Lactonifactor, although a Norwegian study found it was high with CFS patients!.
Bottom Line Suggestions
The lists below are done by merging the lists from the deep dives linked above. Some items may encourage one genus and discourage another genus — those are removed (unless it seems that it strongly predominates on one). The impact on Lactobacillus, Bifidobacterium and E.Coli are intentionally ignored [See this post for the logic]. This is all based on applying logic to the results of studies — thus theoretical. This is an addition (not a replacement) to this overview post.
Also: https://atomic-temporary-42474220.wpcomstaging.com/2017/05/26/firmicutesbacteroidetes-ratio/ because we want the ratio decreased.
- Aspartame (Nutrasweet)
- Bifidobacterium catenulatum
- Bifidobacterium pseudocatenulatum
- Bifidobacterium animalis
- L-Glutamic acid ( monosodium glutamate– MSG) and possibly gluten
- Proton-pump inhibitors (PPI)
- Saccharomyces boulardii
- Vitamin K2
- Bacillus licheniformis (it does produce histamines, see this post)
- Bifidobacterium longum and Bifidobacterium Breve
- Chitosan supplements
- Cranberry 
- Enzymatically modified resistant starch
- Have Chocolate!
- Lactobacillus casei
- Lactobacillus Fermentum 
- Lactobacillus kefiri
- Lactobacillus kefiri LKF01
- Lactobacillus reuteri
- Lactobacillus rhamnosus probiotics
- L-Phenylalanine (Good sources of phenylalanine are eggs, chicken, liver, beef, milk, and soybeans.)
- Low calories High protein diet
- Melatonin 
- Pea Fibre 
- Pomegranate ellagitannins
- Prescript Assist
- Resveratrol 
- Streptococcus Probiotics
- Vitamin D
This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of any condition. Always consult with your medical professional before doing any changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.